Re: Regarding compartments
24 May '05 01:31
GO stands for GeneOntology ( www.geneontology.org). One of their tree is
dedicated to cellular components, which is quite detailed ( although not
all of them are compartments in the traditional sense). Binding
compartments to GO terms would help us to integrate different models. It
is also a problem for us, who would like to provide SBML visualization
and layout service, but can't since we do not know which compartment in
the SMBL model maps to which of our visual regions ( a visual region in
our tool maps to a subtree of the GO cellular component tree).
Upinder S. Bhalla wrote:
>I tried to see if there is a summary of the compartments ideas for SBML 3,
>but only found a list of the people involved in a discussion group on
>spatial features. If this thread is an appropriate place, could one of the
>experts summarize the current ideas here, or direct me to the right page?
>I had two additional wish-list items which also tie into the dynamic
>structures discussion group. These were 1. formation/removal of
>compartments during the course of a simulation, and 2. modification of
>compartment dimensions during a simulation.
>A question for Emek: What is a GO term ?